Typing tool
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Typing tool
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Complete norovirus genomes
| LC790070 | GII.4 Sydney | |
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| GII.P16 |
ORF1: 1..5050
ORF2: 5031..6653
ORF3: 6653..7459
LOCUS LC790070 7499 bp RNA linear VRL 13-DEC-2023
DEFINITION Norovirus GII.4 Sydney 2012 GII/Hu/JP/2023/GII.4Sydney[P16]/
TKY221991 RNA, nearly complete genome.
ACCESSION LC790070
VERSION LC790070.1
KEYWORDS .
SOURCE Norovirus GII.4 Sydney 2012
ORGANISM Norovirus GII.4 Sydney 2012
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1
AUTHORS Asakura,H., Yokota,S., Kuroki,K., Isogai,M., Hayashi,Y.,
Fujiwara,T., Miyake,H., Nagashima,M. and Sadamasu,K.
TITLE The Detection of Norovirus in Tokyo
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7499)
AUTHORS Asakura,H., Yokota,S., Kuroki,K., Isogai,M., Hayashi,Y.,
Fujiwara,T., Miyake,H., Nagashima,M. and Sadamasu,K.
TITLE Direct Submission
JOURNAL Submitted (09-DEC-2023) Contact:Hiroyuki Asakura Tokyo Metropolitan
Institute of Public Health, Department of Microbiology; Hyakunincho
3-24-1, Shinjyuku-ku, Tokyo 169-0073, Japan URL
:https://www.tmiph.metro.tokyo.lg.jp/
FEATURES Location/Qualifiers
source 1..7499
/organism="Norovirus GII.4 Sydney 2012"
/mol_type="genomic RNA"
/isolate="GII/Hu/JP/2023/GII.4Sydney[P16]/TKY221991"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:1776356"
/country="Japan"
/collection_date="2023-03"
gene <1..5050
/gene="POL"
CDS <1..5050
/gene="POL"
/codon_start=2
/product="nonstructural polyprotein"
/protein_id="BEV21224.1"
/translation="NDKEKSSGEGLFTNMSSTLKKALGAKPKQPAPRDEPQKPPRPPT
PELIKRMPPPPPNGEEEGEPVIRYEVKSGVSGLPELTTVPQPGVANTAFSVPPLSLRE
NREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAISMARVELTPLSLYWRV
VYTPQYLISPETLKRLNGEAFPYTAFDNNCYAFCCWVLDLNDSWLSRRMVQRTTGFFR
PYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLIGKIKPLNILNILATCDW
TFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVELVPVVMGGIGL
VLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEANELAMVRAIE
DAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRLSTKSASPDIVGTINALL
ARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAREVARKVASTLTGDQRVG
LIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADTCPLTLNCDRIENKGKV
FDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRDFPGQPDMWKDA
FKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHERMDEFELQG
PTITTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVKTMEELKQAIRNVTIKRC
RIIYGGSTYDLESDGKGKVLVEKVKNASIQTNNELVGALHHLKHARIRYYVKCVQEAV
YSIMQIAGAAFVTTRIARRMNIQELWSKPQLDQNESESKEEAPKPEDDEFIISSKDIK
EEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDRDRYYEE
LAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVTGSEIRRRNPDDFKPKG
KLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPSLFITSTHVIPVGITEA
FGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGTVATVLIKRPTGELMPL
AARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTSPGDCGCPYIYKRGNDYVVIG
VHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGPGGAPKLSTKTKFWRSS
NTPLPPGTYEPAYLGGRDPRVRGGPSLQQVMRDQLKPFTEPRGKPPRPSVLEAAKQTI
INVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHVRKNEFWSGETFTGRLADQASKAN
LMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDLSTMIRCARSFGGLMDEM
KAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDSTQQRAVLAAALEIMVR
FSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCTSQWNSIAHWLLTLCALS
EVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLKEYGLKPTRPDKTEGPLI
ISEDLDGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGPNHEDPNETMIPHSQRPI
QLMALLGEASLHGPSFYSRISKLVITELKEGGMDFYVPRQEPMFRWMRFSDLSTWEGD
RNLAPNFVNEDGVE"
gene 5031..6653
/gene="VP1"
CDS 5031..6653
/gene="VP1"
/codon_start=1
/product="capsid protein VP1"
/protein_id="BEV21225.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSHNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTNHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAV"
gene 6653..7459
/gene="VP2"
CDS 6653..7459
/gene="VP2"
/codon_start=1
/product="capsid protein VP2"
/protein_id="BEV21226.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMRVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARITTYSAGHFSTPQPSGALPGRANLRDAAPARGPSTRPS
NSSTATSVYSNQTISTRLGSTAGSGTSVSSLPSTARTRSWVEDQNRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 caacgacaag gaaaaatctt caggtgaagg cttattcaca aatatgtctt ccaccttaaa
61 gaaagccctc ggggctaagc ccaaacagcc tgccccgaga gacgaaccac aaaagccccc
121 aagaccacca actcccgagt tgatcaagag gatgcccccc cctccaccta atggcgagga
181 agaaggagaa ccagtcatta ggtatgaggt taagagtggg gtctctggcc tgcccgagct
241 cacaacagtc ccccaaccgg gcgtggccaa cacagcattt agtgttccac cactgagctt
301 gagagaaaac agggaggcca aggagccgtt aacaggggca atactagaga tgtgggacgg
361 agagatatac cactatggcc tgtacgtgga gaaaggctta gtgttgggtg tgcacaaacc
421 acctgcagcc ataagcatgg cgagagtgga gctaacgccg ctgtcattgt attggcgtgt
481 ggtgtacact ccccaatacc tcatctcccc tgaaactctc aagaggctca acggagaggc
541 gtttccttac accgctttcg acaacaactg ctatgccttt tgctgctggg tgttagacct
601 caatgattca tggcttagca ggagaatggt gcaaagaaca acgggcttct tcagacctta
661 ccaagagtgg aacagaaaac ccctgcccac catggatgac tccaagataa agaaggttgc
721 aaatatattc ctatgttcat tgtccacatt attcaccaga cccataaaag acctcatagg
781 aaaaattaaa ccattaaaca tattgaacat cctggcaacg tgtgactgga cgtttgccgg
841 aatagtggag tctctgatat tgcttgctga actcttcgga gttttctgga cacccccaga
901 tgtgtctgct atgatcgctc ccttactcgg ggactacgag ttgcaagggc cagaagacct
961 cgccgttgaa ctcgtacctg tggtaatggg agggattggc ttggtgttgg gattcaccaa
1021 agagaaaatt ggcaaaatgc tgtcctcagc agcatcaaca ctcagggctt gtaaagatct
1081 tggtgcctat ggcttagaga tactcaaatt ggtcatgaag tggttcttcc caaagaaaga
1141 ggaggccaat gagttagcca tggtaagggc catagaggat gccgtactag atcttgaggc
1201 aatagaaaat aaccacatga caaccctgtt gaaagacaaa gacagcttag caacatacat
1261 gaaaacactg gacatggagg aggagaaagc cagaaggttg tccacaaaat ctgcatcccc
1321 tgacatagtt gggacaatca acgccctgct ggctcgaata gcagcggcca ggtcattagt
1381 ccacagggcc aaggaagaac tgtctagcag gataaggcca gtagttgtta tgatatctgg
1441 caaaccagga ataggcaaaa ctcatctggc cagggaggtg gcaagaaagg tggcatccac
1501 tctcacaggg gatcagagag tcggactcat accaagaaac ggtgtggatc attgggatgc
1561 atacaaaggt gagagagtcg tgttgtggga cgactatggc atgagtaacc ccattcatga
1621 tgctctccgc atacaagaat tggctgatac gtgccccctt actttaaatt gtgacagaat
1681 tgaaaataag ggaaaagttt ttgacagtga agtcataata attacaacaa accttgccaa
1741 cccagcccca cttgattatg tcaactttga ggcctgttcc aggagaattg atttcctggt
1801 gtacgctgag gcaccagaag tagaaaaggc aaaacgggat tttcctggtc agccagatat
1861 gtggaaggac gccttcaagc cggacttttc acacatcaag ctacagcttg cacctcaggg
1921 cggctttgac aagaatggca acaccccaca tgggaaagga gtgatgaaga ccctcactac
1981 cggttctctg attgcccgtg catcaggcct actgcatgag aggatggatg aatttgaact
2041 ccaaggtccc acaatcacca ctttcaattt cgaccggaac agaatcacag cattcagaca
2101 attggctgca gaaaacaagt atggactggt ggacaccatg aaagttggca atcaactaaa
2161 aggagtgaaa accatggaag aactcaaaca agcaatcagg aatgtgacca ttaagaggtg
2221 ccggatcatc tacggtggct ccacgtatga ccttgaatct gatggcaagg gcaaagttct
2281 ggtggaaaag gtcaagaatg cctctataca gaccaacaac gagttggtcg gggccctgca
2341 ccatcttaaa catgcccgaa tcaggtacta tgtcaaatgt gtacaagaag cagtctattc
2401 catcatgcaa atcgccggcg ctgcgtttgt caccacgcgt attgcacgcc gcatgaacat
2461 acaagaactc tggtcgaagc cacaattaga tcaaaatgaa tcagagtcca aggaagaggc
2521 ccccaagcca gaagatgacg agttcatcat atcttctaag gatatcaagg aggaaggaaa
2581 gaagggcaaa aacaaaactg gccgtggcaa gaaacacact gcattctcca gcaagggctt
2641 gagcgatgag gagtatgacg agtacaagag gataagagaa gagagaaatg ggaagtactc
2701 tatagaggag taccttcaag acagagacag gtactatgag gagctcgcca ttgccaaggc
2761 cacggaagaa gacttctgtg aagaggagga gatcaaaatc cgtcagagaa ttttccgtcc
2821 caccaggaaa caaagaaagg aagagagggc cacactaggg ctggtgacag gttcagaaat
2881 cagaagaaga aaccctgatg acttcaaacc caaagggaag ctgtgggccg atgacaacag
2941 aagtgttgac tacaatgaga aactggactt tgaggccccc ccaagcatat ggtctaggat
3001 tgtgagcttt ggttctggtt ggggcttctg ggtatcacca agcctgttca taacatcaac
3061 tcatgtgatc cctgtaggca taacagaagc atttggagtc cccatcaaac aaattcagat
3121 ccacaaatca ggtgaatttt gtcgattcag attcccaaaa ccaatcagac cagatgtgac
3181 aggaatgatc ttggaagaag gtgcgcctga aggcaccgtg gcaactgtgc tcatcaaacg
3241 ccccaccgga gagctcatgc ctcttgcagc cagaatggga acacacgcaa ccatgaagat
3301 tcaaggccgc atggttggcg gacagatggg tatgttgctc actggatcaa atgccaaagg
3361 aatggatttg ggaacatccc ctggtgactg tggctgccct tacatctata aaagaggcaa
3421 tgactatgta gtcattgggg tgcacactgc agcagcccgt ggtggaaaca ccgtcatctg
3481 tgccacacag ggaagtgagg gtgaggcaac tcttgagggt ggagatgaca aaggaacata
3541 ctgtggggca cccattctag gccctggggg cgcaccaaag ttgagcacca aaaccaaatt
3601 ttggaggtca tcgaacacgc cccttccacc agggacatat gaacctgcct acctcggtgg
3661 ccgtgaccca cgtgttaggg gtgggccctc cttacagcag gtaatgagag accagttgaa
3721 gccattcact gaacccaggg gcaagcctcc aagaccaagt gttttggaag cagccaaaca
3781 aactattatc aatgtccttg aacaaaccct ggatcctcca caaaaatgga catacgcgca
3841 ggcgtgtgcc tcacttgaca aaaccacctc cagcgggcat ccccatcacg tccgaaagaa
3901 tgaattctgg agtggtgaga ccttcactgg tagattggct gaccaagcat caaaagcaaa
3961 cctaatgttt gaggaaggga aacacatgac accagtgtac acagcagcac tcaaggatga
4021 gctagttaag actgagaaaa tctatggaaa aatcaagaag agactgctct ggggctctga
4081 cctgtccacc atgatccggt gcgctaggtc atttggtggg ctcatggacg agatgaaggc
4141 acattgcata tcactcccag tacgagttgg catgaatatg aatgaagatg gtccaataat
4201 atttgagaaa cattccagat acaaatatca ctatgatgca gattactctc gttgggattc
4261 aacacaacag agggcagtat tagcagcagc cttggaaatc atggtcagat tctctgcaga
4321 accacaattg gcacaaatag tcgctgagga tctactggcc cctagtgtag tagatgtagg
4381 agactttaaa atcacaataa atgaggggct accatctggc gtgccatgca cttctcaatg
4441 gaactccatc gcacactggc tgctaactct ctgtgccttg tctgaagtca ccaaactatc
4501 ccctgacatt atacaagcaa attccatgtt ctcattttac ggtgatgacg agattgtcag
4561 caccgacata aagttggacc ctgaacagtt gaccgccaag ttgaaagagt acggcctgaa
4621 accaacccgc ccagacaaga ccgagggacc cctgatcatc agtgaagatt tggacggact
4681 tactttcctc cgaaggacgg tgactcgtga cccagctggc tggtttggaa aactggacca
4741 aagttcaatt ttgaggcaga tgtattggac tagaggacca aatcatgaag accccaacga
4801 gacaatgata ccccattctc aaagacccat acagctcatg gcactgcttg gtgaagcctc
4861 tcttcacgga ccctctttct acagtagaat cagtaaattg gttataactg aacttaaaga
4921 aggtgggatg gacttttacg tgccaaggca ggaacccatg ttcaggtgga tgaggttttc
4981 tgacttgagc acgtgggagg gcgatcgcaa tctggctccc aattttgtga atgaagatgg
5041 cgtcgagtga cgccaaccca tctgatgggt ccgcagccaa cctcgtacca gaggtcaaca
5101 atgaggttat ggctttggag cccgttgttg gtgccgctat tgcggcacct gtagcgggcc
5161 aacaaaatgt aattgacccc tggattagaa ataattttgt acaagcccct ggtggggagt
5221 ttacagtgtc ccccagaaat gctccaggtg aaatactatg gagcgcgccc ctaggccctg
5281 acctaaatcc ctacctatcc catctggcca ggatgtacaa tggttatgca ggtggctttg
5341 aagtgcaggt aattctcgcg gggaacgcgt tcaccgccgg gaagattata tttgcagcag
5401 tcccaccaaa ttttccaact gaaggcttaa gtcctagcca ggtcactatg ttcccccata
5461 taatagtaga tgttagacaa ttggaacctg tgctgatccc tttgcccgat gttaggaata
5521 atttctatca ttacaatcag tcaaatgact ccactattaa gttgatagca atgttgtaca
5581 caccacttag ggctaataat gctggggatg atgttttcac agtctcgtgt cgagttctca
5641 cgaggccatc ccccgatttt gattttatat tcttagtacc acccacagtt gagtcaagaa
5701 ccaaaccatt ctccgtccca gttttaactg ttgaggagat gaccaactca agattcccca
5761 tccctttgga aaagttgttc acaggcccca gcagtgcatt tgttgttcag ccacaaaacg
5821 gcagatgcac aactgatggc gtgctcctag gcaccaccca actttctcct gtcaacatct
5881 gcaccttcag gggggatgtc acccacatca caggcagtca caactacact atgaatttgg
5941 cttctcaaaa ttggaacaac tacgacccga cagaagaaat cccagctccc ctaggaactc
6001 cagattttgt ggggaagatt caaggcatgc tcacccaaac cacaaggaca gatggttcaa
6061 cacgcggcca caaagctaca gtgtacactg ggagcgccga ctttgctcca aaactgggta
6121 gagttcaatt tgaaactgac acaaaccatg attttgaagc caatcaaaac acaaagttca
6181 ccccagtcgg tgtcatccaa gatggtagca ccacccaccg aaacgaaccc caacagtggg
6241 tgctcccaag ttactcaggc agaaatactc acaatgtaca tttagccccc gctgtagccc
6301 ccacctttcc gggtgagcaa cttctcttct ttagatctac catgcccgga tgcagcgggt
6361 accccaacat ggatttggac tgtctgctcc cccaggaatg ggtgcagtac ttttaccaag
6421 aggcagcccc agcacaatct gatgtggctc tgctaagatt tgtgaatcca gacacaggta
6481 gggttttgtt tgagtgcaag cttcacaaat caggctatgt tacagtggct cacactggcc
6541 aacatgattt ggttatcccc cccaatggtt actttaggtt tgattcctgg gtcaaccagt
6601 tctacacgct tgcccccatg ggaaatggaa cggggcgtag acgtgcagta taatggctgg
6661 agctttcttt gctggattgg catctgatgt ccttggctct ggacttggtt cccttatcaa
6721 tgctggggct ggggccatca accaaaaagt tgagtttgaa aataacagaa aattgcaaca
6781 ggcatccttc caatttagca gcaatttgca acaggcttcc tttcaacatg ataaagagat
6841 gctccaagca caaattgagg ccaccaaaaa gctacaacag gaaatgatga gagttaagca
6901 ggcaatgctc ctagagggtg ggttctctga gacagatgcg gcccgcgggg caattaacgc
6961 ccccatgaca aaggctttgg actggagcgg gacaaggtac tgggctccag atgctagaat
7021 tacaacatac agtgcaggcc acttttccac ccctcaacca tcgggggcac tgccaggaag
7081 agctaatctt agggatgctg cccctgctcg gggaccctcc accagacctt ctaactcttc
7141 tactgccacc tctgtgtatt caaatcaaac tatttcaacg agacttggtt ctacagctgg
7201 ttctggaacc agtgtctcga gcctcccgtc aactgcaagg actaggagct gggttgagga
7261 tcaaaatagg aatttgtctc ctttcatgag gggggcccac aacatatcat ttgtcacccc
7321 accatctagc aggtcctcta gccaaggcac agtctcaacc gtgcctaaag aaattttgga
7381 ctcctggact ggcgctttca acacgcgcag gcagcctctc ttcgctcaca ttcgtaagcg
7441 aggggagtca cgggtgtaat gtgaaaagac aaaactgatt attttctttt tcttttctt
//